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EllisLBM

Research Abstracts Online
January - December 2011

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University of Minnesota Twin Cities
Medical School
Department of Laboratory Medicine and Pathology

PI: Lynda B.M. Ellis, Associate Fellow

The University of Minnesota Biocatalysis/Biodegradation Database

These researchers have developed several databases and tools that are housed on MSI servers. The University of Minnesota Biocatalysis and Biodegradation Database (UM-BBD, umbbd.msi.umn.edu/) contains information on microbial biocatalytic reactions and biodegradation pathways for primarily xenobiotic, chemical compounds. The goal of the UM-BBD is to provide information on microbial enzyme-catalyzed reactions that are important for biotechnology. Its Pathway Prediction System (PPS, umbbd.msi.umn.edu/predict/) predicts microbial catabolic reactions using substructure searching, a rule-base, and atom-to-atom mapping. The system can recognize organic functional groups found in a compound and predict transformations based on biotransformation rules. The biotransformation rules are based on reactions found in the UM-BBD or in the scientific literature.

Group Members

Shawn Balcome, Graduate Student
Kathrin Fenner, Swiss Federal Institute of Aquatic Science and Technology, Dübendorf, Switzerland
Jeff Gao, Graduate Student
Getiria I. Onsongo, Graduate Student
Emanuel Schmid, Institute of Molecular Systems Biology, Swiss Federal Institute of Technology, Zurich, Switzerland
Michael Turnbull, Staff
Nickolas R. Walczak, Graduate Student
Jeorg Wicker, Informatics Faculty, Technical University Munich, Munich, Germany